Parallel adaptation in autopolyploid Arabidopsis arenosa is dominated by repeated recruitment of shared alleles

Veronika Konečná, Sian Bray, Jakub Vlček, Magdalena Bohutínská, Doubravka Požárová, Rimjhim Roy Choudhury, Anita Bollmann-Giolai, Paulina Flis, David E. Salt, Christian Parisod, Levi Yant () and Filip Kolář ()
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Veronika Konečná: Charles University
Sian Bray: University of Nottingham
Jakub Vlček: Charles University
Magdalena Bohutínská: Charles University
Doubravka Požárová: Charles University
Rimjhim Roy Choudhury: University of Berne
Anita Bollmann-Giolai: Norwich Research Park
Paulina Flis: University of Nottingham
David E. Salt: University of Nottingham
Christian Parisod: University of Berne
Levi Yant: University of Nottingham
Filip Kolář: Charles University

Nature Communications, 2021, vol. 12, issue 1, 1-13

Abstract: Abstract Relative contributions of pre-existing vs de novo genomic variation to adaptation are poorly understood, especially in polyploid organisms. We assess this in high resolution using autotetraploid Arabidopsis arenosa, which repeatedly adapted to toxic serpentine soils that exhibit skewed elemental profiles. Leveraging a fivefold replicated serpentine invasion, we assess selection on SNPs and structural variants (TEs) in 78 resequenced individuals and discover significant parallelism in candidate genes involved in ion homeostasis. We further model parallel selection and infer repeated sweeps on a shared pool of variants in nearly all these loci, supporting theoretical expectations. A single striking exception is represented by TWO PORE CHANNEL 1, which exhibits convergent evolution from independent de novo mutations at an identical, otherwise conserved site at the calcium channel selectivity gate. Taken together, this suggests that polyploid populations can rapidly adapt to environmental extremes, calling on both pre-existing variation and novel polymorphisms.

Date: 2021
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DOI: 10.1038/s41467-021-25256-5

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